Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 7xog
Q-score: 0.294
Tan S, Zhao J, Hu X, Li Y, Wu Z, Lu G, Yu Z, Du B, Liu Y, Li L, Chen Y, Li Y, Yao Y, Zhang X, Rao J, Gao G, Peng Y, Liu H, Yuan Z, Liu J, Wang Q, Hu H, Gao X, Zhou H, Yu H, Xu Y, Yu W, Feng L, Wang M, Shan C, Lu J, Lin J
Sci Bull (Beijing) (2023) 68 pp. 3192-3206 [ DOI: doi:10.1016/j.scib.2023.11.024 Pubmed: 37993332 ]
- Severe acute respiratory syndrome coronavirus (Complex from Severe acute respiratory syndrome coronavirus)
- Spike glycoprotein,peptide (142 kDa, Protein from synthetic construct)
- Alpha-d-mannopyranose (180 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 7xoe
Q-score: 0.301
Tan S, Zhao J, Hu X, Li Y, Wu Z, Lu G, Yu Z, Du B, Liu Y, Li L, Chen Y, Li Y, Yao Y, Zhang X, Rao J, Gao G, Peng Y, Liu H, Yuan Z, Liu J, Wang Q, Hu H, Gao X, Zhou H, Yu H, Xu Y, Yu W, Feng L, Wang M, Shan C, Lu J, Lin J
Sci Bull (Beijing) (2023) 68 pp. 3192-3206 [ DOI: doi:10.1016/j.scib.2023.11.024 Pubmed: 37993332 ]
Cryo-EM structure of Oryza sativa plastid glycyl-tRNA synthetase (apo form)
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 7xjy
Q-score: 0.399
Yu Z, Wu Z, Li Y, Hao Q, Cao X, Blaha GM, Lin J, Lu G
Nucleic Acids Res (2023) 51 pp. 4000-4011 [ DOI: doi:10.1093/nar/gkad144 Pubmed: 36912079 ]
- Complex (Complex from Oryza sativa subsp. japonica)
- Glycine--trna ligase (117 kDa, Protein from Oryza sativa Japonica Group)
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 7xjz
Q-score: 0.428
Yu Z, Wu Z, Li Y, Hao Q, Cao X, Blaha GM, Lin J, Lu G
Nucleic Acids Res (2023) 51 pp. 4000-4011 [ DOI: doi:10.1093/nar/gkad144 Pubmed: 36912079 ]
- Glycyl-trna synthetase (Complex from Oryza sativa subsp. japonica)
- Trna(gly) (23 kDa, RNA from Oryza sativa)
- Glycine--trna ligase (117 kDa, Protein from Oryza sativa Japonica Group)
- Trna (Complex from Oryza sativa)
- Complex (Complex)
Resolution: 3.59 Å
EM Method: Single-particle
Fitted PDBs: 7xk0
Q-score: 0.5
Yu Z, Wu Z, Li Y, Hao Q, Cao X, Blaha GM, Lin J, Lu G
Nucleic Acids Res (2023) 51 pp. 4000-4011 [ DOI: doi:10.1093/nar/gkad144 Pubmed: 36912079 ]
- Glycyl-trna synthetase (Complex from Oryza sativa subsp. japonica)
- Trna(gly) (23 kDa, RNA from Oryza sativa)
- Glycine--trna ligase (117 kDa, Protein from Oryza sativa Japonica Group)
- Trna (Complex from Oryza sativa)
- Complex (Complex)
Resolution: 4.3 Å
EM Method: Single-particle
Fitted PDBs: 7xk1
Q-score: 0.279
Yu Z, Wu Z, Li Y, Hao Q, Cao X, Blaha GM, Lin J, Lu G
Nucleic Acids Res (2023) 51 pp. 4000-4011 [ DOI: doi:10.1093/nar/gkad144 Pubmed: 36912079 ]
- Glycyl-trna synthetase (Complex from Oryza sativa subsp. japonica)
- Trna(gly) (23 kDa, RNA from Oryza sativa)
- Glycine--trna ligase (117 kDa, Protein from Oryza sativa Japonica Group)
- Trna (Complex from Oryza sativa)
- Complex (Complex)
Resolution: 4.5 Å
EM Method: Single-particle
Fitted PDBs: 8h1c
Q-score: 0.236
Yu Z, Wu Z, Li Y, Hao Q, Cao X, Blaha GM, Lin J, Lu G
Nucleic Acids Res (2023) 51 pp. 4000-4011 [ DOI: doi:10.1093/nar/gkad144 Pubmed: 36912079 ]
- Trna(gly) (74-mer) (23 kDa, RNA from Oryza sativa)
- Complex (Complex from Oryza sativa Japonica Group)
- Glycine--trna ligase (117 kDa, Protein from Oryza sativa Japonica Group)
p53-bound TFIID-based holo PIC on HDM2 promoter
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 7egc
Q-score: 0.051
Chen X, Qi Y, Wu Z, Wang X, Li J, Zhao D, Hou H, Li Y, Yu Z, Liu W, Wang M, Ren Y, Li Z, Yang H, Xu Y
Science (2021) 372 [ DOI: doi:10.1126/science.aba8490 Pubmed: 33795473 ]
- Dna-directed rna polymerase ii subunit f (14 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Sus scrofa)
- General transcription and dna repair factor iih helicase subunit xpd (87 kDa, Protein from Homo sapiens)
- General transcription factor iif subunit 1 (58 kDa, Protein from Homo sapiens)
- General transcription factor iih subunit 4 (52 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 6 (72 kDa, Protein from Homo sapiens)
- Transcription initiation factor iib (34 kDa, Protein from Homo sapiens)
- P53-bound tfiid-based holo pic on hdm2 promoter (Complex)
- Tfiia (Complex from Homo sapiens)
- Transcription initiation factor tfiid subunit 7 (40 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 3 (103 kDa, Protein from Homo sapiens)
- Cyclin-dependent kinase 7 (39 kDa, Protein from Homo sapiens)
- Tfiih (Complex)
- Tata-box-binding protein (37 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 11 (23 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 13 (14 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 5 (86 kDa, Protein from Homo sapiens)
- Cyclin-h (37 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb4 (16 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Sus scrofa)
- Transcription initiation factor tfiid subunit 9 (29 kDa, Protein from Homo sapiens)
- Rna polymerase ii (Complex from Sus scrofa)
- Transcription initiation factor tfiid subunit 1 (212 kDa, Protein from Homo sapiens)
- General transcription factor iif subunit 2 (28 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa)
- Rna_pol_l_2 domain-containing protein (13 kDa, Protein from Sus scrofa)
- General transcription and dna repair factor iih helicase subunit xpb (89 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 8 (34 kDa, Protein from Homo sapiens)
- Tfiib (Complex from Homo sapiens)
- General transcription factor iie subunit 1 (49 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from Sus scrofa)
- Transcription initiation factor tfiid subunit 4 (110 kDa, Protein from Homo sapiens)
- General transcription factor iih subunit 5 (8 kDa, Protein from Homo sapiens)
- Cdk-activating kinase assembly factor mat1 (35 kDa, Protein from Homo sapiens)
- Dna(hdm2 promoters) (Complex)
- Magnesium ion (24 Da, Ligand)
- Dna (71-mer) (21 kDa, DNA from Homo sapiens)
- Transcription initiation factor tfiid subunit 12 (17 kDa, Protein from Homo sapiens)
- Transcription initiation factor iia subunit 2 (12 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 10 (21 kDa, Protein from Homo sapiens)
- General transcription factor iih subunit 3 (34 kDa, Protein from Homo sapiens)
- Transcription initiation factor iie subunit beta (33 kDa, Protein from Homo sapiens)
- Transcription initiation factor iia subunit 1 (41 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Dna (71-mer) (22 kDa, DNA from Homo sapiens)
- General transcription factor iih subunit 2 (44 kDa, Protein from Homo sapiens)
- Rpb10 (7 kDa, Protein from Sus scrofa)
- Transcription initiation factor tfiid subunit 2 (137 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb1 (217 kDa, Protein from Homo sapiens)
- General transcription factor iih subunit 1 (62 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase subunit beta (134 kDa, Protein from Sus scrofa)
- Iron/sulfur cluster (351 Da, Ligand)
- Tfiid (Complex from Homo sapiens)
- Tfiif (Complex from Homo sapiens)
- Rpb12 (7 kDa, Protein from Sus scrofa)
SCP promoter-bound TFIID-TFIIA in initial TBP-loading state
Resolution: 6.75 Å
EM Method: Single-particle
Fitted PDBs: 7egd
Q-score: 0.099
Chen X, Qi Y, Wu Z, Wang X, Li J, Zhao D, Hou H, Li Y, Yu Z, Liu W, Wang M, Ren Y, Li Z, Yang H, Xu Y
Science (2021) 372 [ DOI: doi:10.1126/science.aba8490 Pubmed: 33795473 ]
- Transcription initiation factor tfiid subunit 6 (72 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 7 (40 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 3 (103 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 11 (23 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 13 (14 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 5 (86 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 9 (29 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 1 (212 kDa, Protein from Homo sapiens)
- Dna (72-mer) (22 kDa, DNA from Homo sapiens)
- Transcription initiation factor tfiid subunit 8 (34 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 4 (110 kDa, Protein from Homo sapiens)
- Transcription initiation factor iia subunit 2 (12 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 12 (17 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 10 (21 kDa, Protein from Homo sapiens)
- Transcription initiation factor iia subunit 1 (41 kDa, Protein from Homo sapiens)
- Dna (72-mer) (22 kDa, DNA from Homo sapiens)
- Transcription initiation factor tfiid subunit 2 (137 kDa, Protein from Homo sapiens)
- Scp promoter-bound tfiid-tfiia in initial tbp-loading state (Complex from Homo sapiens)
- Tata-box-binding protein (37 kDa, Protein from Homo sapiens)
TFIID in canonical conformation
Resolution: 9.0 Å
EM Method: Single-particle
Fitted PDBs: 7ege
Q-score: 0.078
Chen X, Qi Y, Wu Z, Wang X, Li J, Zhao D, Hou H, Li Y, Yu Z, Liu W, Wang M, Ren Y, Li Z, Yang H, Xu Y
Science (2021) 372 [ DOI: doi:10.1126/science.aba8490 Pubmed: 33795473 ]
- Transcription initiation factor tfiid subunit 10 (21 kDa, Protein from Homo sapiens)
- Tfiid in canonical conformation (Complex from Homo sapiens)
- Transcription initiation factor tfiid subunit 8 (34 kDa, Protein from Homo sapiens)
- Tata-box-binding protein (37 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 11 (23 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 13 (14 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 5 (86 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 4 (110 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 2 (137 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 6 (72 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 9 (29 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 1 (212 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 12 (17 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 7 (40 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 3 (103 kDa, Protein from Homo sapiens)